The issue of ＂headedness＂ is a product of Chomsky＇s （1988） notion of UG （Universal Grammar） that led to the development of a framework known as P＆P （Principles and Parameters） theory. It is this theory we ha...The issue of ＂headedness＂ is a product of Chomsky＇s （1988） notion of UG （Universal Grammar） that led to the development of a framework known as P＆P （Principles and Parameters） theory. It is this theory we have adopted for our analysis in this paper. The purpose of this paper is to examine the inconsistency in the value of Head Parameter with reference to the value of DP （determiner phrase） in Yorfib^i. As a native speaker of Yorfib~, the author has adopted an introspective method of data collection and used the intuitive knowledge of other native speakers of the language for necessary clarifications. Despite the fact that English and Yorfib~ are both head-initial, the structure of the NPs （noun phrases） in English shows that the head noun is always pre-modified, making the NP ＂head-final＂--a violation of the value of Head Parameter in the language. This necessitated the need for Abney＇s （1987） DP hypothesis; in which the determiner heads its own phrase, thereby making a NP in English head-initial. This solves the problem of Head Parameter in English. However, since nouns in Yor/lb^i are post-modified, adopting ＂DP-analysis＂ will automatically produce head-final--a violation of the value of Head Parameter in the language. Given the inconsistency in the specification of head-complement order among the noun phrases in English and Yorfib~, this paper proposes to set a parameter for SVO （Subject-Verb-Object） languages with pre-modification （like English） to adopt ＂DP-analysis＂, and those with post-modification （like Yorfib^t） to adopt ＂NP-analysis＂. This will ensure ＂head-initial＂ value for the two categories of SVO languages展开更多
With the rapid accumulation of high-throughput metagenomic sequencing data,it is possible to infer microbial species relations in a microbial community systematically.In recent years,some approaches have been proposed...With the rapid accumulation of high-throughput metagenomic sequencing data,it is possible to infer microbial species relations in a microbial community systematically.In recent years,some approaches have been proposed for identifying microbial interaction network.These methods often focus on one dataset without considering the advantage of data integration.In this study,we propose to use a similarity network fusion(SNF)method to infer microbial relations.The SNF efficiently integrates the similarities of species derived from different datasets by a cross-network diffusion process.We also introduce consensus k-nearest neighborhood(Ck-NN)method instead of k-NN in the original SNF(we call the approach CSNF).The final network represents the augmented species relationships with aggregated evidence from various datasets,taking advantage of complementarity in the data.We apply the method on genus profiles derived from three microbiome datasets and we find that CSNF can discover the modular structure of microbial interaction network which cannot be identified by analyzing a single dataset.展开更多
Microarray and deep sequencing technologies have provided unprecedented opportunities for mapping genome mutations,RNA transcripts,transcription factor binding,and histone modifications at high resolution at the genom...Microarray and deep sequencing technologies have provided unprecedented opportunities for mapping genome mutations,RNA transcripts,transcription factor binding,and histone modifications at high resolution at the genome-wide level.This has revolutionized the way in which transcriptomes,regulatory networks and epigenetic regulations have been studied and large amounts of heterogeneous data have been generated.Although efforts are being made to integrate these datasets unbiasedly and efficiently,how best to do this still remains a challenge.Here we review major impacts of high-throughput genome-wide data generation,their relevance to human diseases,and various bioinformatics approaches for data integration.Finally,we provide a case study on inflammatory diseases.展开更多
文摘The issue of ＂headedness＂ is a product of Chomsky＇s （1988） notion of UG （Universal Grammar） that led to the development of a framework known as P＆P （Principles and Parameters） theory. It is this theory we have adopted for our analysis in this paper. The purpose of this paper is to examine the inconsistency in the value of Head Parameter with reference to the value of DP （determiner phrase） in Yorfib^i. As a native speaker of Yorfib~, the author has adopted an introspective method of data collection and used the intuitive knowledge of other native speakers of the language for necessary clarifications. Despite the fact that English and Yorfib~ are both head-initial, the structure of the NPs （noun phrases） in English shows that the head noun is always pre-modified, making the NP ＂head-final＂--a violation of the value of Head Parameter in the language. This necessitated the need for Abney＇s （1987） DP hypothesis; in which the determiner heads its own phrase, thereby making a NP in English head-initial. This solves the problem of Head Parameter in English. However, since nouns in Yor/lb^i are post-modified, adopting ＂DP-analysis＂ will automatically produce head-final--a violation of the value of Head Parameter in the language. Given the inconsistency in the specification of head-complement order among the noun phrases in English and Yorfib~, this paper proposes to set a parameter for SVO （Subject-Verb-Object） languages with pre-modification （like English） to adopt ＂DP-analysis＂, and those with post-modification （like Yorfib^t） to adopt ＂NP-analysis＂. This will ensure ＂head-initial＂ value for the two categories of SVO languages
基金supported in part by US National Science Foundation,Division of Industrial Innovation and Partnerships(1160960 and 1332024)Computing and Communication Foundations(0905291)+2 种基金National Natural Science Foundation of China(90920005,61170189)the Twelfth Five-year Plan of China(2012BAK24B01)National Social Science Funds of China(12&2D223,13&ZD183)
文摘With the rapid accumulation of high-throughput metagenomic sequencing data,it is possible to infer microbial species relations in a microbial community systematically.In recent years,some approaches have been proposed for identifying microbial interaction network.These methods often focus on one dataset without considering the advantage of data integration.In this study,we propose to use a similarity network fusion(SNF)method to infer microbial relations.The SNF efficiently integrates the similarities of species derived from different datasets by a cross-network diffusion process.We also introduce consensus k-nearest neighborhood(Ck-NN)method instead of k-NN in the original SNF(we call the approach CSNF).The final network represents the augmented species relationships with aggregated evidence from various datasets,taking advantage of complementarity in the data.We apply the method on genus profiles derived from three microbiome datasets and we find that CSNF can discover the modular structure of microbial interaction network which cannot be identified by analyzing a single dataset.
文摘Microarray and deep sequencing technologies have provided unprecedented opportunities for mapping genome mutations,RNA transcripts,transcription factor binding,and histone modifications at high resolution at the genome-wide level.This has revolutionized the way in which transcriptomes,regulatory networks and epigenetic regulations have been studied and large amounts of heterogeneous data have been generated.Although efforts are being made to integrate these datasets unbiasedly and efficiently,how best to do this still remains a challenge.Here we review major impacts of high-throughput genome-wide data generation,their relevance to human diseases,and various bioinformatics approaches for data integration.Finally,we provide a case study on inflammatory diseases.
